A number of people of reported issues backing up Windows hosts with SMB and BackupPC 3.2.1 on Ubuntu 12.04 precise. This is caused by a bug in Samba/smbclient since 3.6.x where excluded directories are still listed (even if they won’t be backed up). It has not yet been fixed, but there is a workaround: downgrade Samba to 3.5.x.
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My team manages a number of user workstations running Ubuntu 12.04 “Precise Pangolin”. We install a standard APT configuration which automatically upgrades these PCs as soon as packages are available, without prompting and without a GUI. Therefore we also need to disable the update-notifier so it doesn’t display these packages to the user.